On 2005-02-08 (14:35) S. Frank Yan wrote:
Hi,
I was wondering if there is a way in Jmol to select those hydrogen
atoms that are bonded to nitrogen atoms. I could do this by
distance; however, it might be better to say something like select
hydrogens connected to nitrogens. =20
why not by
On Wed, February 9, 2005 9:27 am, timothy driscoll said:
On 2005-02-08 (14:35) S. Frank Yan wrote:
Hi,
I was wondering if there is a way in Jmol to select those hydrogen
atoms that are bonded to nitrogen atoms. I could do this by
distance; however, it might be better to say something like
On Feb 9, 2005, at 9:38 AM, [EMAIL PROTECTED] wrote:
On Wed, February 9, 2005 9:27 am, timothy driscoll said:
On 2005-02-08 (14:35) S. Frank Yan wrote:
Hi,
I was wondering if there is a way in Jmol to select those hydrogen
atoms that are bonded to nitrogen atoms. I could do this by
distance;
I was wondering if there is a way in Jmol to select those hydrogen
atoms that are bonded to nitrogen atoms. I could do this by
distance; however, it might be better to say something like select
hydrogens connected to nitrogens. =20
why not by distance?
select hydrogen and
select hydrogen and within(2.5,nitrogen)
[snip]
Does this also select the N atoms? ( not at a platform I can test it)
select within(1.15, nitrogen)
will select the nitrogens themselves ... they are within the distance.
select hydrogen and within(1.15, nitrogen)
will restrict to only
Chris wrote:
To get the nitrogens too you can do
select hydrogen and within(1.15,nitrogen) or nitrogen and
within(1.15,hydrogen)
I gave it a try and it seems to work. Is there a better way? Probably.
I am fairly new at this.
It works ... but I think you would be better off saying:
select
Is there documentation that explains (rather painfully slowly) how to
send a script (.spt) to the Jmol application? I looked at
http://jmol.sourceforge.net/docs/JmolUserGuide/ch02.html
which is the same as what I found in the Help menu
but to no avail. I typed all manner of things into the Rasmol
Is there documentation that explains (rather painfully slowly) how to
send a script (.spt) to the Jmol application?
from the command line pass the -s (or --script) parameter
I have a script file called 'yellow.txt' that contains one line
color atoms yellow
On unix, in the same directory as
On Feb 9, 2005, at 2:24 PM, Miguel wrote:
[snip]
Also, I notice that I cannot copy anything out of the script window
(such as the error messages I am getting) or paste anything into it
(such as the contents of the script file). Is this a security measure
of some sort, or an OS X glitch?
OS X
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